AutoCloner

Multiple sequence alignment - TraesCS5B01G164600

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)

BLAST Results

Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

	qseqid	sseqid	percentage.identical	alignment.length	no.mismatch	no.gap.openings	qstart	qend	sstart	send	evalue	bitscore
0	TraesCS5B01G164600	chr5B	100.000	3189	0	0	1	3189	304656484	304653296	0.000000e+00	5890.0
1	TraesCS5B01G164600	chr5A	91.667	2292	105	35	557	2826	356595015	356592788	0.000000e+00	3096.0
2	TraesCS5B01G164600	chr5A	95.930	344	13	1	2847	3189	356506007	356505664	9.990000e-155	556.0
3	TraesCS5B01G164600	chr5D	96.067	1678	41	8	546	2220	268934925	268933270	0.000000e+00	2710.0
4	TraesCS5B01G164600	chr5D	95.072	487	22	2	1	485	268935870	268935384	0.000000e+00	765.0
5	TraesCS5B01G164600	chr5D	87.793	598	34	13	2402	2969	268928987	268929575	0.000000e+00	664.0
6	TraesCS5B01G164600	chr5D	97.297	111	2	1	3050	3160	268930003	268930112	1.510000e-43	187.0
7	TraesCS5B01G164600	chr5D	100.000	57	0	0	2350	2406	268927885	268927941	4.350000e-19	106.0
8	TraesCS5B01G164600	chr5D	95.385	65	3	0	2238	2302	268933200	268933136	1.560000e-18	104.0
9	TraesCS5B01G164600	chr5D	92.647	68	4	1	2294	2361	268933111	268933045	2.620000e-16	97.1
10	TraesCS5B01G164600	chr5D	94.444	54	2	1	2963	3015	268929946	268929999	7.330000e-12	82.4
11	TraesCS5B01G164600	chr3D	84.123	1203	136	22	997	2188	319865083	319866241	0.000000e+00	1112.0
12	TraesCS5B01G164600	chr2B	82.468	1329	174	39	881	2187	632513565	632512274	0.000000e+00	1109.0
13	TraesCS5B01G164600	chr3A	83.990	1168	136	25	1040	2194	405958709	405957580	0.000000e+00	1074.0
14	TraesCS5B01G164600	chr3B	83.076	1229	141	35	997	2194	400289507	400288315	0.000000e+00	1055.0
15	TraesCS5B01G164600	chr3B	96.875	32	1	0	3096	3127	730701797	730701828	2.000000e-03	54.7
16	TraesCS5B01G164600	chr3B	96.875	32	1	0	3096	3127	730712366	730712397	2.000000e-03	54.7
17	TraesCS5B01G164600	chr2A	88.020	601	67	3	1588	2187	677038870	677038274	0.000000e+00	706.0
18	TraesCS5B01G164600	chr2A	87.854	601	68	3	1588	2187	677368012	677367416	0.000000e+00	701.0
19	TraesCS5B01G164600	chr2A	83.817	482	55	13	1014	1488	677069437	677068972	1.360000e-118	436.0
20	TraesCS5B01G164600	chr2A	83.817	482	55	13	1014	1488	677101378	677100913	1.360000e-118	436.0
21	TraesCS5B01G164600	chr2A	83.817	482	55	13	1014	1488	677157449	677156984	1.360000e-118	436.0
22	TraesCS5B01G164600	chr2A	83.817	482	55	13	1014	1488	677172652	677172187	1.360000e-118	436.0
23	TraesCS5B01G164600	chrUn	87.833	600	70	1	1588	2187	183932081	183932677	0.000000e+00	701.0
24	TraesCS5B01G164600	chrUn	83.956	455	52	12	1014	1462	183904444	183904883	1.770000e-112	416.0
25	TraesCS5B01G164600	chrUn	83.956	455	52	12	1014	1462	240848883	240849322	1.770000e-112	416.0
26	TraesCS5B01G164600	chrUn	77.231	650	97	29	881	1508	253003269	253002649	1.830000e-87	333.0
27	TraesCS5B01G164600	chrUn	77.077	650	98	32	881	1508	210967100	210966480	8.530000e-86	327.0
28	TraesCS5B01G164600	chrUn	79.079	521	70	21	999	1508	25995392	25994900	3.970000e-84	322.0
29	TraesCS5B01G164600	chrUn	76.608	684	101	31	847	1508	183931379	183932025	3.970000e-84	322.0
30	TraesCS5B01G164600	chrUn	76.608	684	101	31	847	1508	226925333	226925979	3.970000e-84	322.0
31	TraesCS5B01G164600	chrUn	76.608	684	101	31	847	1508	255747003	255747649	3.970000e-84	322.0
32	TraesCS5B01G164600	chrUn	78.887	521	71	21	999	1508	26107340	26106848	1.850000e-82	316.0

These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

	query	scaffold	start	end	length	rev.comp	avg.bitscore	max.bitscore	avg.percent.identical	query.start	query.end	num_hsp	groupid	homo_length
0	TraesCS5B01G164600	chr5B	304653296	304656484	3188	True	5890.000	5890	100.00000	1	3189	1	chr5B.!!$R1	3188
1	TraesCS5B01G164600	chr5A	356592788	356595015	2227	True	3096.000	3096	91.66700	557	2826	1	chr5A.!!$R2	2269
2	TraesCS5B01G164600	chr5D	268933045	268935870	2825	True	919.025	2710	94.79275	1	2361	4	chr5D.!!$R1	2360
3	TraesCS5B01G164600	chr5D	268927885	268930112	2227	False	259.850	664	94.88350	2350	3160	4	chr5D.!!$F1	810
4	TraesCS5B01G164600	chr3D	319865083	319866241	1158	False	1112.000	1112	84.12300	997	2188	1	chr3D.!!$F1	1191
5	TraesCS5B01G164600	chr2B	632512274	632513565	1291	True	1109.000	1109	82.46800	881	2187	1	chr2B.!!$R1	1306
6	TraesCS5B01G164600	chr3A	405957580	405958709	1129	True	1074.000	1074	83.99000	1040	2194	1	chr3A.!!$R1	1154
7	TraesCS5B01G164600	chr3B	400288315	400289507	1192	True	1055.000	1055	83.07600	997	2194	1	chr3B.!!$R1	1197
8	TraesCS5B01G164600	chr2A	677038274	677038870	596	True	706.000	706	88.02000	1588	2187	1	chr2A.!!$R1	599
9	TraesCS5B01G164600	chr2A	677367416	677368012	596	True	701.000	701	87.85400	1588	2187	1	chr2A.!!$R6	599
10	TraesCS5B01G164600	chrUn	183931379	183932677	1298	False	511.500	701	82.22050	847	2187	2	chrUn.!!$F5	1340
11	TraesCS5B01G164600	chrUn	253002649	253003269	620	True	333.000	333	77.23100	881	1508	1	chrUn.!!$R4	627
12	TraesCS5B01G164600	chrUn	210966480	210967100	620	True	327.000	327	77.07700	881	1508	1	chrUn.!!$R3	627
13	TraesCS5B01G164600	chrUn	226925333	226925979	646	False	322.000	322	76.60800	847	1508	1	chrUn.!!$F2	661
14	TraesCS5B01G164600	chrUn	255747003	255747649	646	False	322.000	322	76.60800	847	1508	1	chrUn.!!$F4	661

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
141	142	0.103937	CTCCCGCTCAAGGACAGATC	59.896	60.000	0.0	0.0	0.00	2.75	F
1542	2065	1.531677	CCATACGCCAAAGTTCGCATG	60.532	52.381	0.0	0.0	31.32	4.06	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1556	2079	1.136085	TGCGCGTAAAACATCTGCTTC	60.136	47.619	8.43	0.0	0.00	3.86	R
3121	5198	1.061131	GTCGAAGCATGTCAACATCGG	59.939	52.381	0.00	0.0	33.61	4.18	R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
20	21	2.972505	AGCAAGGTTGACGCACGG	60.973	61.111	0.00	0.00	0.00	4.94
26	27	1.374252	GGTTGACGCACGGACATCT	60.374	57.895	0.00	0.00	0.00	2.90
37	38	0.536687	CGGACATCTACGCCCCTAGA	60.537	60.000	0.00	0.00	0.00	2.43
101	102	1.153628	GTATGGAGGAGCAACGCGT	60.154	57.895	5.58	5.58	0.00	6.01
107	108	3.607987	GGAGCAACGCGTCGATCG	61.608	66.667	14.44	9.36	43.12	3.69
141	142	0.103937	CTCCCGCTCAAGGACAGATC	59.896	60.000	0.00	0.00	0.00	2.75
186	187	3.393800	CGTTGGATCTACATGGGCTTAG	58.606	50.000	0.00	0.00	0.00	2.18
221	222	2.517875	ATTGGGCGATGGCAGAGC	60.518	61.111	1.01	8.26	42.47	4.09
228	229	2.586792	GATGGCAGAGCGAAGGGT	59.413	61.111	0.00	0.00	0.00	4.34
234	235	1.596934	CAGAGCGAAGGGTAAGCCA	59.403	57.895	0.00	0.00	36.17	4.75
248	249	2.610859	GCCAAGGGAGGGGTGAGA	60.611	66.667	0.00	0.00	0.00	3.27
280	281	4.803426	CGCCAGTGAGGAGGACGC	62.803	72.222	0.00	0.00	41.22	5.19
281	282	4.459089	GCCAGTGAGGAGGACGCC	62.459	72.222	0.00	0.00	41.22	5.68
490	812	5.464030	AACAGTACCGTGTACTTCATTCT	57.536	39.130	12.32	0.00	0.00	2.40
620	1021	2.352229	CGTGTGCCGCACAAGTTG	60.352	61.111	27.28	13.70	46.28	3.16
621	1022	2.655044	GTGTGCCGCACAAGTTGC	60.655	61.111	27.28	11.29	46.28	4.17
633	1034	4.637483	CACAAGTTGCTGGAAGAAGAAA	57.363	40.909	1.81	0.00	34.07	2.52
679	1093	8.698973	TTCAAGAATATACGGAGAGAAGAGAT	57.301	34.615	0.00	0.00	0.00	2.75
769	1184	5.487153	ACGCACTTCATCTACAGTACTAG	57.513	43.478	0.00	0.00	0.00	2.57
770	1185	4.942483	ACGCACTTCATCTACAGTACTAGT	59.058	41.667	0.00	0.00	0.00	2.57
771	1186	6.111382	ACGCACTTCATCTACAGTACTAGTA	58.889	40.000	0.00	0.00	0.00	1.82
821	1238	2.831526	TCTACAGTAATGGTGCTGCTGA	59.168	45.455	0.00	0.00	40.88	4.26
947	1369	2.097160	CATGCTTGCGACGTGCTC	59.903	61.111	0.00	0.00	46.63	4.26
1542	2065	1.531677	CCATACGCCAAAGTTCGCATG	60.532	52.381	0.00	0.00	31.32	4.06
1556	2079	5.795766	AGTTCGCATGTGAATACAAATACG	58.204	37.500	23.58	0.00	40.84	3.06
1983	2511	0.528924	TACATGAGCGGCGTGTACTT	59.471	50.000	9.37	0.00	44.72	2.24
2203	2731	3.185246	AGCTAACTGATCCATGAACCG	57.815	47.619	0.00	0.00	0.00	4.44
2431	4099	7.231115	GTGTCACCCTTGTATTTTACCCTTTAA	59.769	37.037	0.00	0.00	0.00	1.52
2440	4108	8.271312	TGTATTTTACCCTTTAATCTTCGTGG	57.729	34.615	0.00	0.00	0.00	4.94
2445	4114	4.077108	ACCCTTTAATCTTCGTGGGTTTC	58.923	43.478	0.00	0.00	44.68	2.78
2545	4214	7.648142	TGGTCAAATGATAATATTTCGGAAGC	58.352	34.615	0.00	0.00	0.00	3.86
2593	4262	1.942586	GCAAGGTAGTGTTACGGTGGG	60.943	57.143	0.00	0.00	0.00	4.61
2613	4282	5.242838	GTGGGAAAAAGTGTACATGGAATCA	59.757	40.000	0.00	0.00	0.00	2.57
2767	4436	4.464597	AGAGAGTTTTTACTGCGGAGAGAT	59.535	41.667	12.26	0.00	0.00	2.75
2858	4557	6.855836	TGAATGAGATACTTCATTTTGCCAC	58.144	36.000	3.09	0.00	45.30	5.01
2870	4569	5.233988	TCATTTTGCCACCGAATAAAAAGG	58.766	37.500	0.00	0.00	0.00	3.11
2874	4573	4.674281	TGCCACCGAATAAAAAGGTTTT	57.326	36.364	0.00	0.00	35.85	2.43
2920	4619	1.961793	TTTTCCACACAGAAGGACCG	58.038	50.000	0.00	0.00	32.62	4.79
2969	4668	4.752101	GTGGCACAATATCCTATCTCACAC	59.248	45.833	13.86	0.00	44.16	3.82
3015	5092	5.255687	TGTGAGAAACATTATGGCATCACT	58.744	37.500	1.65	0.00	37.34	3.41
3018	5095	5.711506	TGAGAAACATTATGGCATCACTTGT	59.288	36.000	1.65	0.84	0.00	3.16
3019	5096	6.883756	TGAGAAACATTATGGCATCACTTGTA	59.116	34.615	1.65	0.00	0.00	2.41
3020	5097	7.557358	TGAGAAACATTATGGCATCACTTGTAT	59.443	33.333	1.65	0.00	0.00	2.29
3021	5098	8.297470	AGAAACATTATGGCATCACTTGTATT	57.703	30.769	1.65	2.22	0.00	1.89
3022	5099	8.192774	AGAAACATTATGGCATCACTTGTATTG	58.807	33.333	1.65	0.00	0.00	1.90
3023	5100	7.408756	AACATTATGGCATCACTTGTATTGT	57.591	32.000	1.65	0.00	0.00	2.71
3024	5101	7.408756	ACATTATGGCATCACTTGTATTGTT	57.591	32.000	1.65	0.00	0.00	2.83
3025	5102	7.483307	ACATTATGGCATCACTTGTATTGTTC	58.517	34.615	1.65	0.00	0.00	3.18
3026	5103	7.340232	ACATTATGGCATCACTTGTATTGTTCT	59.660	33.333	1.65	0.00	0.00	3.01
3027	5104	7.701539	TTATGGCATCACTTGTATTGTTCTT	57.298	32.000	1.65	0.00	0.00	2.52
3028	5105	5.375417	TGGCATCACTTGTATTGTTCTTG	57.625	39.130	0.00	0.00	0.00	3.02
3029	5106	4.826733	TGGCATCACTTGTATTGTTCTTGT	59.173	37.500	0.00	0.00	0.00	3.16
3030	5107	5.301551	TGGCATCACTTGTATTGTTCTTGTT	59.698	36.000	0.00	0.00	0.00	2.83
3031	5108	5.858581	GGCATCACTTGTATTGTTCTTGTTC	59.141	40.000	0.00	0.00	0.00	3.18
3032	5109	5.858581	GCATCACTTGTATTGTTCTTGTTCC	59.141	40.000	0.00	0.00	0.00	3.62
3033	5110	6.294176	GCATCACTTGTATTGTTCTTGTTCCT	60.294	38.462	0.00	0.00	0.00	3.36
3034	5111	6.618287	TCACTTGTATTGTTCTTGTTCCTG	57.382	37.500	0.00	0.00	0.00	3.86
3035	5112	6.353323	TCACTTGTATTGTTCTTGTTCCTGA	58.647	36.000	0.00	0.00	0.00	3.86
3036	5113	6.826231	TCACTTGTATTGTTCTTGTTCCTGAA	59.174	34.615	0.00	0.00	0.00	3.02
3037	5114	7.338196	TCACTTGTATTGTTCTTGTTCCTGAAA	59.662	33.333	0.00	0.00	0.00	2.69
3038	5115	8.137437	CACTTGTATTGTTCTTGTTCCTGAAAT	58.863	33.333	0.00	0.00	0.00	2.17
3039	5116	8.695456	ACTTGTATTGTTCTTGTTCCTGAAATT	58.305	29.630	0.00	0.00	0.00	1.82
3042	5119	9.349713	TGTATTGTTCTTGTTCCTGAAATTAGT	57.650	29.630	0.00	0.00	0.00	2.24
3045	5122	9.750125	ATTGTTCTTGTTCCTGAAATTAGTTTC	57.250	29.630	3.86	3.86	43.22	2.78
3046	5123	8.519799	TGTTCTTGTTCCTGAAATTAGTTTCT	57.480	30.769	11.47	0.00	43.30	2.52
3047	5124	8.621286	TGTTCTTGTTCCTGAAATTAGTTTCTC	58.379	33.333	11.47	0.09	43.30	2.87
3048	5125	8.841300	GTTCTTGTTCCTGAAATTAGTTTCTCT	58.159	33.333	11.47	0.00	43.30	3.10
3083	5160	5.988310	ATCTGATTGGCAATCTGTTTTCA	57.012	34.783	33.21	20.03	38.72	2.69
3114	5191	4.201861	GGTTTTGCGGCAAGATTTTCAAAA	60.202	37.500	15.78	1.11	32.94	2.44
3115	5192	4.528531	TTTGCGGCAAGATTTTCAAAAC	57.471	36.364	15.78	0.00	0.00	2.43
3116	5193	3.451141	TGCGGCAAGATTTTCAAAACT	57.549	38.095	0.00	0.00	0.00	2.66
3117	5194	4.576216	TGCGGCAAGATTTTCAAAACTA	57.424	36.364	0.00	0.00	0.00	2.24
3118	5195	4.545610	TGCGGCAAGATTTTCAAAACTAG	58.454	39.130	0.00	0.00	0.00	2.57
3119	5196	4.277174	TGCGGCAAGATTTTCAAAACTAGA	59.723	37.500	0.00	0.00	0.00	2.43
3120	5197	5.048083	TGCGGCAAGATTTTCAAAACTAGAT	60.048	36.000	0.00	0.00	0.00	1.98
3121	5198	5.513141	GCGGCAAGATTTTCAAAACTAGATC	59.487	40.000	0.00	0.00	0.00	2.75
3122	5199	6.030228	CGGCAAGATTTTCAAAACTAGATCC	58.970	40.000	0.00	0.00	0.00	3.36
3160	5237	7.585210	GCTTCGACAACTTTTTCGTTAGTAATT	59.415	33.333	0.00	0.00	36.60	1.40
3163	5240	9.848172	TCGACAACTTTTTCGTTAGTAATTAAC	57.152	29.630	0.00	0.00	38.62	2.01
3164	5241	9.853921	CGACAACTTTTTCGTTAGTAATTAACT	57.146	29.630	0.00	0.00	39.62	2.24
3186	5263	8.798859	AACTTGTTATAGTCTTACGAGGTAGA	57.201	34.615	0.00	0.00	0.00	2.59
3187	5264	8.977267	ACTTGTTATAGTCTTACGAGGTAGAT	57.023	34.615	0.00	0.00	0.00	1.98

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
20	21	1.337387	GTGTCTAGGGGCGTAGATGTC	59.663	57.143	0.00	0.00	31.66	3.06
26	27	1.452651	CTCGGTGTCTAGGGGCGTA	60.453	63.158	0.00	0.00	0.00	4.42
37	38	4.309950	GGGCGGTTGTCTCGGTGT	62.310	66.667	0.00	0.00	0.00	4.16
85	86	2.125512	GACGCGTTGCTCCTCCAT	60.126	61.111	15.53	0.00	0.00	3.41
159	160	2.102420	CCATGTAGATCCAACGGCTACA	59.898	50.000	0.00	0.00	45.79	2.74
186	187	4.111916	CCAATGCATTTTGTCGGGATAAC	58.888	43.478	9.83	0.00	0.00	1.89
221	222	0.107654	CTCCCTTGGCTTACCCTTCG	60.108	60.000	0.00	0.00	33.59	3.79
228	229	0.914417	CTCACCCCTCCCTTGGCTTA	60.914	60.000	0.00	0.00	0.00	3.09
234	235	2.285743	GGCTCTCACCCCTCCCTT	60.286	66.667	0.00	0.00	0.00	3.95
257	258	2.282251	TCCTCACTGGCGACTCGT	60.282	61.111	0.00	0.00	35.26	4.18
266	267	4.803426	GCGGCGTCCTCCTCACTG	62.803	72.222	9.37	0.00	0.00	3.66
490	812	7.681939	AAAAATCTCACTGCCTAATTTCGTA	57.318	32.000	0.00	0.00	0.00	3.43
524	847	1.280982	CTCGTAGGTCGTAGCGTACA	58.719	55.000	0.00	0.00	40.80	2.90
620	1021	6.625873	TCTTCTTCTTTTTCTTCTTCCAGC	57.374	37.500	0.00	0.00	0.00	4.85
621	1022	8.443953	TCTTCTTCTTCTTTTTCTTCTTCCAG	57.556	34.615	0.00	0.00	0.00	3.86
679	1093	2.443203	TTCCTATCCGGCGGCTGA	60.443	61.111	23.83	11.68	0.00	4.26
769	1184	5.590259	TGATGCAGAGGCCTAAAAGAAATAC	59.410	40.000	4.42	0.00	40.13	1.89
770	1185	5.754782	TGATGCAGAGGCCTAAAAGAAATA	58.245	37.500	4.42	0.00	40.13	1.40
771	1186	4.603131	TGATGCAGAGGCCTAAAAGAAAT	58.397	39.130	4.42	0.00	40.13	2.17
878	1295	1.037579	GGCAGGTAAGATGGGGCAAC	61.038	60.000	0.00	0.00	0.00	4.17
879	1296	1.306296	GGCAGGTAAGATGGGGCAA	59.694	57.895	0.00	0.00	0.00	4.52
947	1369	4.821589	GGGTTCGGGAGCGAGCTG	62.822	72.222	0.84	0.00	0.00	4.24
1499	2018	5.187772	GGACTATGGACTATGGTATGCATGA	59.812	44.000	10.16	0.00	29.68	3.07
1500	2019	5.046376	TGGACTATGGACTATGGTATGCATG	60.046	44.000	10.16	0.00	29.68	4.06
1501	2020	5.093677	TGGACTATGGACTATGGTATGCAT	58.906	41.667	3.79	3.79	29.68	3.96
1502	2021	4.488770	TGGACTATGGACTATGGTATGCA	58.511	43.478	0.00	0.00	29.68	3.96
1503	2022	5.683876	ATGGACTATGGACTATGGTATGC	57.316	43.478	0.00	0.00	29.68	3.14
1504	2023	6.680625	GCGTATGGACTATGGACTATGGTATG	60.681	46.154	0.00	0.00	29.68	2.39
1505	2024	5.360144	GCGTATGGACTATGGACTATGGTAT	59.640	44.000	0.00	0.00	29.68	2.73
1508	2027	3.119101	GGCGTATGGACTATGGACTATGG	60.119	52.174	0.00	0.00	0.00	2.74
1509	2028	3.509967	TGGCGTATGGACTATGGACTATG	59.490	47.826	0.00	0.00	0.00	2.23
1510	2029	3.774734	TGGCGTATGGACTATGGACTAT	58.225	45.455	0.00	0.00	0.00	2.12
1513	2032	2.902705	TTGGCGTATGGACTATGGAC	57.097	50.000	0.00	0.00	0.00	4.02
1542	2065	7.005062	ACATCTGCTTCGTATTTGTATTCAC	57.995	36.000	0.00	0.00	0.00	3.18
1556	2079	1.136085	TGCGCGTAAAACATCTGCTTC	60.136	47.619	8.43	0.00	0.00	3.86
2150	2678	1.097547	TAGTAGGCGTAGGTGGCGAC	61.098	60.000	0.00	0.00	39.72	5.19
2203	2731	4.868171	TGTTGTAGATAAACCATGCTCGAC	59.132	41.667	0.00	0.00	0.00	4.20
2431	4099	4.351874	TGAAAGAGAAACCCACGAAGAT	57.648	40.909	0.00	0.00	0.00	2.40
2440	4108	5.701290	TCGAAAAGGAGATGAAAGAGAAACC	59.299	40.000	0.00	0.00	0.00	3.27
2445	4114	5.928839	TGACTTCGAAAAGGAGATGAAAGAG	59.071	40.000	0.00	0.00	36.78	2.85
2492	4161	8.462589	TGAATATAGCAATGCCAGTTTATGAA	57.537	30.769	0.00	0.00	0.00	2.57
2545	4214	1.817520	TGGGCAATGGCGTACATCG	60.818	57.895	0.00	0.00	39.40	3.84
2559	4228	1.662044	CTTGCCAAGTGAAGTGGGC	59.338	57.895	0.00	0.00	46.58	5.36
2593	4262	6.446318	TGCTTGATTCCATGTACACTTTTTC	58.554	36.000	0.00	0.00	0.00	2.29
2613	4282	4.451774	ACGCACATGCATTTTATTTTGCTT	59.548	33.333	0.00	0.00	42.21	3.91
2710	4379	3.010420	GTTGGGCTAGAAACACATCTCC	58.990	50.000	0.00	0.00	0.00	3.71
2834	4533	6.127647	GGTGGCAAAATGAAGTATCTCATTCA	60.128	38.462	0.00	0.00	43.65	2.57
2845	4544	6.128580	CCTTTTTATTCGGTGGCAAAATGAAG	60.129	38.462	0.00	0.00	0.00	3.02
2874	4573	7.001674	ACCAATAAAGGCGTCATATGGATAAA	58.998	34.615	2.13	0.00	0.00	1.40
2887	4586	5.099575	GTGTGGAAAATACCAATAAAGGCG	58.900	41.667	0.00	0.00	41.87	5.52
2895	4594	4.825085	GTCCTTCTGTGTGGAAAATACCAA	59.175	41.667	0.00	0.00	41.87	3.67
2920	4619	7.199541	TGATAGACTTAGGTTGCGATAGTAC	57.800	40.000	0.00	0.00	39.35	2.73
2969	4668	2.612672	TGGTGTTTTTGTTGCATGCATG	59.387	40.909	23.37	22.70	0.00	4.06
3003	5080	7.176515	ACAAGAACAATACAAGTGATGCCATAA	59.823	33.333	0.00	0.00	0.00	1.90
3019	5096	9.750125	GAAACTAATTTCAGGAACAAGAACAAT	57.250	29.630	0.00	0.00	43.29	2.71
3020	5097	8.966868	AGAAACTAATTTCAGGAACAAGAACAA	58.033	29.630	0.00	0.00	45.78	2.83
3021	5098	8.519799	AGAAACTAATTTCAGGAACAAGAACA	57.480	30.769	0.00	0.00	45.78	3.18
3022	5099	8.841300	AGAGAAACTAATTTCAGGAACAAGAAC	58.159	33.333	0.00	0.00	45.78	3.01
3023	5100	8.980481	AGAGAAACTAATTTCAGGAACAAGAA	57.020	30.769	0.00	0.00	45.78	2.52
3024	5101	8.432805	AGAGAGAAACTAATTTCAGGAACAAGA	58.567	33.333	0.00	0.00	45.78	3.02
3025	5102	8.614469	AGAGAGAAACTAATTTCAGGAACAAG	57.386	34.615	0.00	0.00	45.78	3.16
3026	5103	7.385205	CGAGAGAGAAACTAATTTCAGGAACAA	59.615	37.037	0.00	0.00	45.78	2.83
3027	5104	6.868864	CGAGAGAGAAACTAATTTCAGGAACA	59.131	38.462	0.00	0.00	45.78	3.18
3028	5105	7.091443	TCGAGAGAGAAACTAATTTCAGGAAC	58.909	38.462	0.00	0.00	45.78	3.62
3029	5106	7.228314	TCGAGAGAGAAACTAATTTCAGGAA	57.772	36.000	0.00	0.00	45.78	3.36
3030	5107	6.835819	TCGAGAGAGAAACTAATTTCAGGA	57.164	37.500	0.00	0.00	45.78	3.86
3031	5108	7.434897	CAGATCGAGAGAGAAACTAATTTCAGG	59.565	40.741	0.00	0.00	45.78	3.86
3032	5109	7.973388	ACAGATCGAGAGAGAAACTAATTTCAG	59.027	37.037	0.00	0.00	45.78	3.02
3033	5110	7.831753	ACAGATCGAGAGAGAAACTAATTTCA	58.168	34.615	0.00	0.00	45.78	2.69
3043	5120	7.681543	CAATCAGATTGACAGATCGAGAGAGAA	60.682	40.741	17.16	0.00	42.98	2.87
3044	5121	6.238703	CAATCAGATTGACAGATCGAGAGAGA	60.239	42.308	17.16	0.00	42.98	3.10
3045	5122	5.916320	CAATCAGATTGACAGATCGAGAGAG	59.084	44.000	17.16	0.00	42.98	3.20
3046	5123	5.221204	CCAATCAGATTGACAGATCGAGAGA	60.221	44.000	22.78	0.00	43.57	3.10
3047	5124	4.983538	CCAATCAGATTGACAGATCGAGAG	59.016	45.833	22.78	0.00	42.83	3.20
3048	5125	4.738839	GCCAATCAGATTGACAGATCGAGA	60.739	45.833	22.78	0.00	42.83	4.04
3114	5191	3.386078	AGCATGTCAACATCGGATCTAGT	59.614	43.478	0.00	0.00	33.61	2.57
3115	5192	3.987547	AGCATGTCAACATCGGATCTAG	58.012	45.455	0.00	0.00	33.61	2.43
3116	5193	4.371786	GAAGCATGTCAACATCGGATCTA	58.628	43.478	0.00	0.00	33.61	1.98
3117	5194	2.996249	AGCATGTCAACATCGGATCT	57.004	45.000	0.00	0.00	33.61	2.75
3118	5195	2.033407	CGAAGCATGTCAACATCGGATC	60.033	50.000	0.00	0.00	33.61	3.36
3119	5196	1.935873	CGAAGCATGTCAACATCGGAT	59.064	47.619	0.00	0.00	33.61	4.18
3120	5197	1.067213	TCGAAGCATGTCAACATCGGA	60.067	47.619	0.00	0.00	33.61	4.55
3121	5198	1.061131	GTCGAAGCATGTCAACATCGG	59.939	52.381	0.00	0.00	33.61	4.18
3122	5199	1.726248	TGTCGAAGCATGTCAACATCG	59.274	47.619	0.00	0.00	33.61	3.84
3160	5237	9.890629	TCTACCTCGTAAGACTATAACAAGTTA	57.109	33.333	0.00	0.00	45.01	2.24
3161	5238	8.798859	TCTACCTCGTAAGACTATAACAAGTT	57.201	34.615	0.00	0.00	45.01	2.66
3162	5239	8.977267	ATCTACCTCGTAAGACTATAACAAGT	57.023	34.615	0.00	0.00	45.01	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.